update output dir type def

Author: Tristan Dennis

malariagen_data/anoph/base_params.py

@@ -316,3 +316,10 @@ def validate_sample_selection_params(
     to be overwritten. Default is False.
     """,
 ]
+
+output_dir: TypeAlias = Annotated[
+    str,
+    """
+    A string indicating the desired output file location
+    """,
+]

malariagen_data/anoph/to_plink.py

@@ -58,7 +58,7 @@ def _create_plink_outfile(
 
     def biallelic_snps_to_plink(
         self,
-        output_dir,
+        output_dir: base_params.output_dir,
         region: base_params.regions,
         n_snps: base_params.n_snps,
         thin_offset: base_params.thin_offset = 0,